LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_215.5wLII_11184_49
Total number of 3D structures: 9
LGA calculations using distance cutoff DIST: 4.0 A

Residues superimposed below 2.00 A: GREEN
Residues superimposed below 4.00 A: YELLOW
Residues superimposed below 6.00 A: ORANGE
Residues superimposed below 8.00 A: BROWN
Residues superimposed above 8.00 A or not aligned: RED
Terminal residues not aligned: GREY

Structure Deviation Summary

Calculations based on one final LGA superposition
(Bar representation of 3D plots, TEXT)

Structures ordered by LGA_S - score
Structure
NS
NT
N(dist=4.0)
RMSD(N)
Seq_ID(N)
LGA_S
LGA_Q
PLOTS
2k1s_A
149
134
126
0.57
25.40
93.955
18.910
T P
1r1m_A
140
134
112
1.43
24.11
80.280
7.321
T P
3cyp_C
134
134
106
1.75
17.92
72.519
5.742
T P
1oap_A
108
134
104
1.93
26.92
69.956
5.125
T P
2hqs_H
108
134
102
2.01
26.47
65.025
4.825
T P
2aiz_P
134
134
95
1.86
24.21
62.897
4.847
T P
2zf8_A
246
134
83
2.17
20.48
49.234
3.651
T P
1tia_A
271
134
66
2.80
16.67
32.841
2.275
T P
1prx_A
220
134
59
2.97
8.47
29.107
1.923
T P

NS : Total number of residues in Structure (rotated structure)
NT : Total number of residues in TARGET (frame of reference)
N : Total number of residues superimposed under 4.0 Angstrom distance cutoff
RMSD : RMS deviation calculated on all N residues superimposed under 4.0 Angstrom distance cutoff
Seq_Id : Sequence Identity. Percent of identical residues from the total of N aligned.
LGA_S : Structure similarity score calculated by internal LGA procedure (see LGA paper for details)
LGA_Q : Score (how tight is the superposition) calculated by the formula: Q = 0.1*N/(0.1+RMSD)
PLOTS : T - Flat text file (output from LGA program, rotated structure)
PLOTS : P - Plot of superimposed structures (3D plot colored as bars)

Citing LGA:
Zemla A., "LGA - a Method for Finding 3D Similarities in Protein Structures", Nucleic Acids Research, 2003, Vol. 31, No. 13, pp. 3370-3374. [MEDLINE]